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SeqArray specifications

Information


Unique identifier OMICS_17295
Name SeqArray
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input format VCF, BCF, BGT
Output format VCF, BCF, BGT
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.20.2
Stability Stable
Requirements
methods, parallel, BiocGenerics, Biobase, IRanges, GenomicRanges, Rsamtools, S4Vectors, GenomeInfoDb, Biostrings, Rcpp, BiocParallel, RUnit, knitr, VariantAnnotation, digest, R(>=3.5.0), SNPRelate, gdsfmt(>=1.10.1), crayon
Maintained Yes

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Versioning


No version available

Documentation


Maintainer


  • person_outline Xiuwen Zheng

Publication for SeqArray

SeqArray citation

call_split

High Resolution Single Cell Sequencing of Malaria Parasites

2017
Genome Biol Evol
PMCID: 5737330
PMID: 29220419
DOI: 10.1093/gbe/evx256
call_split See protocol

[…] the rhomap function in LDHat v2.2 ().All statistical analysis was performed in R v3.3.0 and used the Intervals v0.15.1 (), R package version 0.15.1 (https://CRAN.R-project.org/package=intervals), and SeqArray v1.12.9 () SeqArray: Big Data Management of Whole-genome Sequence Variant Calls. R package version 1.12.9. (http://github.com/zhengxwen/SeqArray) packages. […]


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SeqArray institution(s)
Department of Biostatistics, University of Washington, Seattle, WA, USA; Bioinformatics and Computational Biology, Genentech, Inc., South San Francisco, CA, USA
SeqArray funding source(s)
Supported by NIH Grant GM099568.

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